{% extends "ponsol2web/base_generic.html" %}
{% block content %}
    <!-- Jumbotron -->
    <div class="jumbotron">
        <h1 class="">Wecome to <strong>PON-Sol2</strong></h1>
        <p class="lead text-justify" style="margin-bottom: 0px">
            Solubility is a central protein property and when reduced can lead to diseases. PON-Sol2 is a prediction
            program to detect amino acid substitutions that increase, decrease or have no effect on the protein
            solubility. The method is based on a gradient boosting algorithm and it has been trained on a large data
            set. The method is fast and has high performance. It can be used to predict variations for proteins from any
            organism.
        </p>

        <p class="text-justify">
            PON-Sol2 was developed in collaboration between
            <a href="http://structure.bmc.lu.se/">
                the groups of Prof. Mauno Vihinen
            </a>
            in Lund University
            and
            Assoc. Prof. Yang Yang in Soochow University.
            You can also visit
            <a class=""
               href="http://139.196.42.166:8010/" target="_blank">
                the mirror website in Soochow University, China.
            </a>
        </p>
        <p><a class="btn btn-lg btn-success" href="{% url "ponsol2:input" %}" role="button">Get started</a></p>
    </div>

    <!-- Example row of columns -->
    <div class="row">
        <div class="col-lg-4 col-md-4">
            <h2>Input formats</h2>
            <p>
                There are two input formats. Sequences can be given either in FASTA format or indicated by their IDs.
            </p>
            <p><a class="btn btn-primary" href="{% url "ponsol2:about" %}#input_example" role="button">View details
                »</a></p>
        </div>
        <div class="col-lg-4 col-md-4">
            <h2>Data sets</h2>
            <p>
                5666 variants were used for method training and 662 variants were used for blind test. The data sets are
                freely available.
                <a href="{% url "ponsol2:download-dataset-ponsol2" %}"> <span
                        class="glyphicon glyphicon-download-alt"></span></a>
            </p>
            <p><a class="btn btn-primary" href="{% url "ponsol2:about" %}#dataset" role="button">View details »</a></p>
        </div>
        <div class="col-lg-4 col-md-4">
            <h2>Prediction results</h2>
            <p>
                Result are displayed on the Results page. You can also provide your email, then the results are by
                email.
            </p>
            <p><a class="btn btn-primary" href="{% url "ponsol2:task-list" %}" role="button">View
                details »</a></p>
        </div>
    </div>
    <div class="row text-justify" style=" padding: 30px">
        <h1 class="text-justify text-capitalize">How to cite?</h1>
        <p>
            PON-Sol2 manuscript has been submitted. In the meantime if using the service cite the URL.
            <br>
            {#        <a class="btn btn-success btn-xs" href="#" target="_blank"> Go to Bioinformatics </a>#}
        </p>
        <p class="text-justify">
            {#            PON-Sol (2016), the old version based on Random Forests, has been published Bioinformatics.#}
            {#            <br>#}
            The original PON-Sol was published in
            Yang, Y. , Niroula, A. , Shen, B. , & Vihinen, M. . (2016). Pon-sol: prediction of effects of amino acid
            substitutions on protein solubility. Bioinformatics, btw066.

            <a class="btn btn-success btn-xs"
               href="https://academic.oup.com/bioinformatics/article/32/13/2032/1742792?login=true" target="_blank">
                {#            Go to Bioinformatics#}
                Bioinformatics
            </a>
            {#            Yang Yang, Abhishek Niroula, Bairong Shen, Mauno Vihinen, PON-Sol: prediction of effects of amino acid substitutions on protein solubility, Bioinformatics, Volume 32, Issue 13, 1 July 2016, Pages 2032–2034, https://doi.org/10.1093/bioinformatics/btw066#}
            {#            It was trained this far on the largest dataset of 406 single amino acid substitutions.#}
            {#            It grouped variants into three classes: solubility decreasing and increasing variants and those not affecting solubility.#}
        </p>
        {#        <div class="col-lg-6">#}
        {#            <h2 class="text-center text-capitalize">How to cite?</h2>#}
        {#        </div>#}
        {#        <div class="col-lg-6">#}
        {#            <h2 class="text-center text-capitalize">Dataset</h2>#}
        {#        </div>#}
    </div>
{% endblock %}

